Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 69 of 427
Found at i:17124780 original size:43 final size:42
Alignment explanation
Indices: 17124628--17124780 Score: 128
Period size: 43 Copynumber: 3.6 Consensus size: 42
17124618 ATGCTATATT
* * * *
17124628 CCAGATATGGTCTTACATGTTAT-CACATATCAATGCCACTGTC
1 CCAGACATGGTCTTACACGTAATCCA-ATA-CAATGCCAATGTC
* * * * * * *
17124671 CTAGACAGGGTCTTACACGAAATCGATTAACGATACCAATGTC
1 CCAGACATGGTCTTACACGTAATCCAAT-ACAATGCCAATGTC
* *
17124714 CCAGACATGGTCTTAGACATAATCTCAATACAATGCCAATGTC
1 CCAGACATGGTCTTACACGTAATC-CAATACAATGCCAATGTC
* *
17124757 CCAGGCATGGTCTTACATGTAATC
1 CCAGACATGGTCTTACACGTAATC
17124781 ACATCTCGAT
Statistics
Matches: 83, Mismatches: 24, Indels: 6
0.73 0.21 0.05
Matches are distributed among these distances:
43 79 0.95
44 4 0.05
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (42 bp):
CCAGACATGGTCTTACACGTAATCCAATACAATGCCAATGTC
Found at i:17132120 original size:15 final size:15
Alignment explanation
Indices: 17132100--17132132 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
17132090 TTCATTTTGA
17132100 TTTATTTTT-TTATTT
1 TTTATTTTTCTT-TTT
17132115 TTTATTTTTCTTTTT
1 TTTATTTTTCTTTTT
17132130 TTT
1 TTT
17132133 TGACATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.88
16 2 0.12
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTATTTTTCTTTTT
Found at i:17136048 original size:11 final size:11
Alignment explanation
Indices: 17136032--17136062 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
17136022 GAGGCGAGCA
17136032 CTAAATTAATT
1 CTAAATTAATT
17136043 CTAAATTAATT
1 CTAAATTAATT
*
17136054 CTAATTTAA
1 CTAAATTAA
17136063 ACATAAATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (11 bp):
CTAAATTAATT
Found at i:17141281 original size:26 final size:25
Alignment explanation
Indices: 17141249--17141345 Score: 113
Period size: 26 Copynumber: 3.7 Consensus size: 25
17141239 AGCATGGCTG
17141249 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGACAGAG-CA
* *
17141275 CGAGAACAGATAATTGTGGCAGAGCA
1 CCAGAACAGATAA-TGTGACAGAGCA
*
17141301 CCAGAACAGATATATATGACAGAGCCA
1 CCAGAACAGATA-ATGTGACAGAG-CA
*
17141328 CCAGATCAGATAAATGTG
1 CCAGAACAGAT-AATGTG
17141346 GCATAGCCAC
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
26 33 0.55
27 26 0.43
28 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.16
Consensus pattern (25 bp):
CCAGAACAGATAATGTGACAGAGCA
Found at i:17141323 original size:53 final size:53
Alignment explanation
Indices: 17141249--17141358 Score: 150
Period size: 53 Copynumber: 2.1 Consensus size: 53
17141239 AGCATGGCTG
* * * *
17141249 CCAGAACAGATAATGTGACAGAGTCACGAGAACAGATAATTGTGGCAGAG-CA
1 CCAGAACAGATAATATGACAGAGCCACCAGAACAGATAAATGTGGCAGAGCCA
* *
17141301 CCAGAACAGATATATATGACAGAGCCACCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGATA-ATATGACAGAGCCACCAGAACAGATAAATGTGGCAGAGCCA
17141355 CCAG
1 CCAG
17141359 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
52 12 0.24
53 32 0.64
54 6 0.12
ACGTcount: A:0.40, C:0.21, G:0.24, T:0.15
Consensus pattern (53 bp):
CCAGAACAGATAATATGACAGAGCCACCAGAACAGATAAATGTGGCAGAGCCA
Found at i:17141337 original size:27 final size:26
Alignment explanation
Indices: 17141249--17141358 Score: 123
Period size: 27 Copynumber: 4.2 Consensus size: 26
17141239 AGCATGGCTG
*
17141249 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGACAGAGCCA
* *
17141275 CGAGAACAGATAATTGTGGCAGAG-CA
1 CCAGAACAGATAA-TGTGACAGAGCCA
*
17141301 CCAGAACAGATATATATGACAGAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCA
* * *
17141328 CCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGAT-AATGTGACAGAGCCA
17141355 CCAG
1 CCAG
17141359 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 33 0.46
27 37 0.52
28 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGACAGAGCCA
Found at i:17142821 original size:24 final size:24
Alignment explanation
Indices: 17142794--17142862 Score: 129
Period size: 24 Copynumber: 2.9 Consensus size: 24
17142784 GTTCTCCGTA
17142794 ATCAGCTCCTAAATCCTCTCCCTT
1 ATCAGCTCCTAAATCCTCTCCCTT
17142818 ATCAGCTCCTAAATCCTCTCCCTT
1 ATCAGCTCCTAAATCCTCTCCCTT
*
17142842 ATCAGCTCCTAAATCTTCTCC
1 ATCAGCTCCTAAATCCTCTCC
17142863 TGATAGCCTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.22, C:0.41, G:0.04, T:0.33
Consensus pattern (24 bp):
ATCAGCTCCTAAATCCTCTCCCTT
Found at i:17146759 original size:23 final size:23
Alignment explanation
Indices: 17146729--17146870 Score: 266
Period size: 23 Copynumber: 6.1 Consensus size: 23
17146719 ACCATTTCCA
17146729 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
17146752 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
17146775 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
17146799 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
17146822 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
17146845 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
17146868 TTT
1 TTT
17146871 TGCACTTCCT
Statistics
Matches: 116, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
23 94 0.81
24 22 0.19
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:17146943 original size:9 final size:9
Alignment explanation
Indices: 17146929--17146985 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
17146919 ATCTCATGTG
17146929 CATATCATA
1 CATATCATA
*
17146938 CATATCATGTG
1 CATATCA--TA
17146949 CATATCATA
1 CATATCATA
* *
17146958 CATGTCATGTG
1 CATATCA--TA
17146969 CATATCATA
1 CATATCATA
17146978 CATATCAT
1 CATATCAT
17146986 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:17146945 original size:20 final size:20
Alignment explanation
Indices: 17146917--17146987 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
17146907 GCATTTATGA
*
17146917 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
17146937 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
17146957 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
17146977 ACATATCATGT
1 ACATATCATGT
17146988 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:17146952 original size:11 final size:11
Alignment explanation
Indices: 17146922--17146976 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
17146912 TATGAACATC
17146922 TCATGTGCATA
1 TCATGTGCATA
*
17146933 TCA--TACATA
1 TCATGTGCATA
17146942 TCATGTGCATA
1 TCATGTGCATA
* *
17146953 TCA--TACATG
1 TCATGTGCATA
17146962 TCATGTGCATA
1 TCATGTGCATA
17146973 TCAT
1 TCAT
17146977 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:17148341 original size:27 final size:27
Alignment explanation
Indices: 17148312--17148404 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
17148302 GGGTATTTTA
* * *
17148312 GTAATTTTGTAAATCGATGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
17148339 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* ** *
17148366 GTAATTCTATAAATAAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
17148393 GTAATTCTGTAA
1 GTAATTCTGTAA
17148405 GTCGTAATTC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.43, C:0.08, G:0.18, T:0.31
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:17148369 original size:54 final size:54
Alignment explanation
Indices: 17148312--17148827 Score: 464
Period size: 54 Copynumber: 9.3 Consensus size: 54
17148302 GGGTATTTTA
* * * *
17148312 GTAATTTTGTAAATCGATGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACG
* ** *
17148366 GTAATTCTATAAATAAAGGGTAAAATGGTAATTCTGTAAGTCGTAATTCTGTAAATCGAGGGTAA
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGT-A-----AA-TC-----A---AGGGTAA
17148431 AACG
51 AACG
* * * * * * * *
17148435 ATAATTATGTAAATCGGGGGTAAAATGGTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACG
* ** * **
17148489 GTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAATA
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC-AAGGGTAAAACG
* * ** *
17148543 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACG
* * * *
17148597 GTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACG
* * *
17148651 ATAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTTTATAAATC-GAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACG
* * *
17148705 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACG
* * * *
17148759 GTAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAA-CTGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC-AAGGGTAAAACG
*
17148813 GTAA-TTTGTAAATCG
1 GTAATTTTATAAATCG
17148828 GGAGTACTTT
Statistics
Matches: 384, Mismatches: 58, Indels: 41
0.80 0.12 0.08
Matches are distributed among these distances:
53 11 0.03
54 320 0.83
55 3 0.01
57 1 0.00
60 2 0.01
61 2 0.01
62 1 0.00
63 2 0.01
66 1 0.00
68 1 0.00
69 40 0.10
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (54 bp):
GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACG
Found at i:17148413 original size:42 final size:42
Alignment explanation
Indices: 17148366--17148446 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
17148356 GGGTAAAACA
* * *
17148366 GTAATTCTATAAATAAAGGGTAAAATGGTAATTCTGTAAGTC
1 GTAATTCTATAAATAAAGGGTAAAACGATAATTATGTAAGTC
* **
17148408 GTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAA
1 GTAATTCTATAAATAAAGGGTAAAACGATAATTATGTAA
17148447 ATCGGGGGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (42 bp):
GTAATTCTATAAATAAAGGGTAAAACGATAATTATGTAAGTC
Found at i:17148439 original size:27 final size:27
Alignment explanation
Indices: 17148408--17148827 Score: 490
Period size: 27 Copynumber: 15.6 Consensus size: 27
17148398 TCTGTAAGTC
17148408 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * *
17148435 ATAATTATGTAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
17148462 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* **
17148489 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
**
17148516 GTAATTCTGTAAA-CTGAGGGTAAAATA
1 GTAATTCTGTAAATC-GAGGGTAAAACG
*
17148543 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
17148570 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
17148597 GTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
17148624 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
17148651 ATAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
*
17148678 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
17148705 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
17148732 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* ** *
17148759 GTAATTTTACAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
17148786 GTAATTCTATAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
17148813 GTAATT-TGTAAATCG
1 GTAATTCTGTAAATCG
17148828 GGAGTACTTT
Statistics
Matches: 341, Mismatches: 44, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
26 9 0.03
27 329 0.96
28 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:17148456 original size:69 final size:69
Alignment explanation
Indices: 17148339--17148473 Score: 191
Period size: 69 Copynumber: 2.0 Consensus size: 69
17148329 TGGTAAAACA
* *
17148339 GTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATAAAGGGTAAAATGGTAATTCTGTA
1 GTAATTCTGTAAATCAAGGGTAAAACAGTAATTATATAAATAAAGGGTAAAATGGTAATTATGTA
17148404 AGTC
66 AGTC
* * ***
17148408 GTAATTCTGTAAATCGAGGGTAAAAC-GATAATTATGTAAATCGGGGGTAAAATGGTAATTATGT
1 GTAATTCTGTAAATCAAGGGTAAAACAG-TAATTATATAAATAAAGGGTAAAATGGTAATTATGT
17148472 AA
65 AA
17148474 ATTAGGGGTA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 1 0.02
69 57 0.98
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.30
Consensus pattern (69 bp):
GTAATTCTGTAAATCAAGGGTAAAACAGTAATTATATAAATAAAGGGTAAAATGGTAATTATGTA
AGTC
Found at i:17151822 original size:24 final size:24
Alignment explanation
Indices: 17151771--17151959 Score: 296
Period size: 24 Copynumber: 8.0 Consensus size: 24
17151761 GCTTTATCAT
*
17151771 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
17151796 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
17151820 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
17151843 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
17151867 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
17151891 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
17151914 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
17151937 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
17151960 GCACTTCCTC
Statistics
Matches: 156, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
23 68 0.44
24 76 0.49
25 12 0.08
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:17151846 original size:23 final size:23
Alignment explanation
Indices: 17151792--17151958 Score: 280
Period size: 23 Copynumber: 7.1 Consensus size: 23
17151782 CCTAGCCTCT
*
17151792 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
17151815 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
17151839 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
17151862 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
17151886 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
17151910 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
17151933 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
17151956 TTT
1 TTT
17151959 TGCACTTCCT
Statistics
Matches: 139, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
23 71 0.51
24 68 0.49
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:17151846 original size:47 final size:47
Alignment explanation
Indices: 17151792--17151959 Score: 293
Period size: 47 Copynumber: 3.6 Consensus size: 47
17151782 CCTAGCCTCT
*
17151792 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
17151839 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
17151886 TTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
17151933 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
17151960 GCACTTCCTC
Statistics
Matches: 114, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
46 22 0.19
47 70 0.61
48 22 0.19
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:17151871 original size:71 final size:71
Alignment explanation
Indices: 17151771--17151959 Score: 310
Period size: 71 Copynumber: 2.7 Consensus size: 71
17151761 GCTTTATCAT
* *
17151771 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAA
17151835 GCCCTTTA
64 GCCCTTTA
* *
17151843 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGC
17151908 CCTTTA
66 CCTTTA
17151914 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
17151960 GCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
70 26 0.23
71 73 0.66
72 12 0.11
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGC
CCTTTA
Found at i:17152031 original size:9 final size:9
Alignment explanation
Indices: 17152017--17152073 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
17152007 ATCTCATGTG
17152017 CATATCATA
1 CATATCATA
*
17152026 CATATCATGTG
1 CATATCA--TA
17152037 CATATCATA
1 CATATCATA
* *
17152046 CATGTCATGTG
1 CATATCA--TA
17152057 CATATCATA
1 CATATCATA
17152066 CATATCAT
1 CATATCAT
17152074 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:17152033 original size:20 final size:20
Alignment explanation
Indices: 17152005--17152075 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
17151995 GCATTTATGA
*
17152005 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
17152025 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
17152045 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
17152065 ACATATCATGT
1 ACATATCATGT
17152076 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:17152040 original size:11 final size:11
Alignment explanation
Indices: 17152010--17152064 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
17152000 TATGAACATC
17152010 TCATGTGCATA
1 TCATGTGCATA
*
17152021 TCA--TACATA
1 TCATGTGCATA
17152030 TCATGTGCATA
1 TCATGTGCATA
* *
17152041 TCA--TACATG
1 TCATGTGCATA
17152050 TCATGTGCATA
1 TCATGTGCATA
17152061 TCAT
1 TCAT
17152065 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:17152150 original size:24 final size:24
Alignment explanation
Indices: 17152112--17152158 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
17152102 ATATATAAAC
* *
17152112 CCTAGGGGTATAATGGTCATTTTA
1 CCTAGGGGCAAAATGGTCATTTTA
17152136 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
17152159 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.34
Consensus pattern (24 bp):
CCTAGGGGCAAAATGGTCATTTTA
Found at i:17153398 original size:27 final size:27
Alignment explanation
Indices: 17153331--17153402 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 27
17153321 TACCATACAG
* * ***
17153331 GGGTATTTTGGTAGTTTTACAAATTGA
1 GGGTATTTTAGTAATTTTACAAACCAA
***
17153358 GGGTATTGCCGTAATTTTACAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAA
17153385 GGGTATTTTAGTAATTTT
1 GGGTATTTTAGTAATTTT
17153403 GTAAATCGAG
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAACCAA
Found at i:17153414 original size:27 final size:27
Alignment explanation
Indices: 17153394--17153922 Score: 602
Period size: 27 Copynumber: 19.6 Consensus size: 27
17153384 AGGGTATTTT
*
17153394 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
17153421 AGTAATT-TGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
17153447 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
17153474 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
17153501 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
17153528 -GATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * * *
17153555 GGTAATTATGTAAAT-TAGGGGTAAAAT
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
17153582 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
17153609 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
17153636 GGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
17153663 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
17153690 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
17153717 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
17153744 AATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
17153771 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
17153798 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
17153825 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
17153852 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
17153879 AGTAATTCTATAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
17153906 GGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATCG
17153923 GGAGTACTTT
Statistics
Matches: 444, Mismatches: 47, Indels: 22
0.87 0.09 0.04
Matches are distributed among these distances:
26 29 0.07
27 410 0.92
28 5 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:17153952 original size:81 final size:81
Alignment explanation
Indices: 17153395--17153922 Score: 670
Period size: 81 Copynumber: 6.5 Consensus size: 81
17153385 GGGTATTTTA
* * * * *
17153395 GTAATTTTGTAAATCGAGGGTAAAACAGTAATT-TGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTA
*
17153459 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAACG
* * * *
17153475 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTA
* *
17153540 AATCGGGGGTAAAATG
66 AATCGAGGGTAAAACG
* * * **
17153556 GTAATTATGTAAAT-TAGGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGT
1 GTAATTTTGTAAATCGA-GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGT
17153620 AAA-CTGAGGGTAAAACG
65 AAATC-GAGGGTAAAACG
* * *
17153637 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTA
*
17153702 AATCGAGGGTAAAACA
66 AATCGAGGGTAAAACG
* ** *
17153718 GTAATTTTGTAAATCAAGGGTAAAACAATAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGT
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATC-GAGGGTAAAACGGTAATTCTGT
17153782 AAATCGAGGGTAAAACG
65 AAATCGAGGGTAAAACG
** * * **
17153799 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTACA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTA
*
17153864 AATCGAGGGTAAAACA
66 AATCGAGGGTAAAACG
* * *
17153880 GTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCG
1 GTAATTTTGTAAATC-GAGGGTAAAACGGTAATTCTATAAATCG
17153923 GGAGTACTTT
Statistics
Matches: 391, Mismatches: 49, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
80 35 0.09
81 353 0.90
82 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.28
Consensus pattern (81 bp):
GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTA
AATCGAGGGTAAAACG
Found at i:17156380 original size:27 final size:27
Alignment explanation
Indices: 17156326--17156436 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
17156316 AGCATGGCTG
* * *
17156326 CCAGAATAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
17156352 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
17156379 CCAGAACAGCT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * * *
17156406 CCAGATCAGATAAATGTGGCATAGCTA
1 CCAGAACAGATAATTGTGGCAGAGCCA
17156433 CCAG
1 CCAG
17156437 GATGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 14 0.19
27 58 0.79
28 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:17157899 original size:24 final size:24
Alignment explanation
Indices: 17157872--17157940 Score: 129
Period size: 24 Copynumber: 2.9 Consensus size: 24
17157862 GTTCTCCGTA
17157872 ATCAGCTCCTAAATCCTCTCCCTT
1 ATCAGCTCCTAAATCCTCTCCCTT
17157896 ATCAGCTCCTAAATCCTCTCCCTT
1 ATCAGCTCCTAAATCCTCTCCCTT
*
17157920 ATCAGCTCCTAAATCTTCTCC
1 ATCAGCTCCTAAATCCTCTCC
17157941 TGATAGCCTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.22, C:0.41, G:0.04, T:0.33
Consensus pattern (24 bp):
ATCAGCTCCTAAATCCTCTCCCTT
Found at i:17164815 original size:20 final size:20
Alignment explanation
Indices: 17164787--17164824 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17164777 TCATGTCAGC
17164787 AAATAATTTTAAAATTATTG
1 AAATAATTTTAAAATTATTG
* *
17164807 AAATTATTTTAAATTTAT
1 AAATAATTTTAAAATTAT
17164825 CATCACCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
AAATAATTTTAAAATTATTG
Found at i:17168906 original size:19 final size:19
Alignment explanation
Indices: 17168882--17168920 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
17168872 GATCCCCTTG
*
17168882 ATTAACACCTACCACAAGA
1 ATTAACACATACCACAAGA
17168901 ATTAACACATACCACAAGA
1 ATTAACACATACCACAAGA
17168920 A
1 A
17168921 ATCACAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.28, G:0.05, T:0.15
Consensus pattern (19 bp):
ATTAACACATACCACAAGA
Found at i:17188112 original size:40 final size:40
Alignment explanation
Indices: 17188014--17188113 Score: 97
Period size: 34 Copynumber: 2.6 Consensus size: 40
17188004 AACAGTTTGT
*
17188014 GCCTTAGCCCATCTCAGTAT-AATATCAAATATGCAGTAGG
1 GCCTTAGCCCATC-CAGTATCAGTATCAAATATGCAGTAGG
* * *
17188054 GCCTTACCCCAT-C---A-CAGTATC-AGTATGCATTAGG
1 GCCTTAGCCCATCCAGTATCAGTATCAAATATGCAGTAGG
17188088 GCCTTAGCCCATCACAGTATCAGTAT
1 GCCTTAGCCCATC-CAGTATCAGTAT
17188114 GCATTATTCA
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
34 22 0.46
35 6 0.12
36 1 0.02
38 1 0.02
39 1 0.02
40 17 0.35
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (40 bp):
GCCTTAGCCCATCCAGTATCAGTATCAAATATGCAGTAGG
Found at i:17188117 original size:34 final size:34
Alignment explanation
Indices: 17188043--17188119 Score: 136
Period size: 34 Copynumber: 2.3 Consensus size: 34
17188033 TAATATCAAA
*
17188043 TATGCAGTAGGGCCTTACCCCATCACAGTATCAG
1 TATGCATTAGGGCCTTACCCCATCACAGTATCAG
*
17188077 TATGCATTAGGGCCTTAGCCCATCACAGTATCAG
1 TATGCATTAGGGCCTTACCCCATCACAGTATCAG
17188111 TATGCATTA
1 TATGCATTA
17188120 TTCAGTAACA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (34 bp):
TATGCATTAGGGCCTTACCCCATCACAGTATCAG
Found at i:17193208 original size:48 final size:48
Alignment explanation
Indices: 17193156--17193377 Score: 230
Period size: 48 Copynumber: 4.6 Consensus size: 48
17193146 TATGTGTGCT
* * ** *
17193156 AGTGTAAGGCCATGTCTGTAACATGGCATCGGCCACGATATAAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCC
* * * * *
17193204 AGTGTAAGACCATGTTTGGAACATGGCATCGG-CATTGATATGTGTGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCA-CGATATGAGAGCC
* * *** *
17193252 AGTGTAAGACCACGTTTGGGACATGGCATCGACCATTTTACGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCC
* * * ** *
17193300 AATGTAAGACCATGTCTGGGACATGGCATCGGCCTCGGCATGTGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCC
17193348 AGTGTAAGACCATGTTTGGGACATGGCATC
1 AGTGTAAGACCATGTTTGGGACATGGCATC
17193378 AGTAATTTAC
Statistics
Matches: 142, Mismatches: 30, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
47 2 0.01
48 138 0.97
49 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCC
Found at i:17193307 original size:96 final size:96
Alignment explanation
Indices: 17193143--17193377 Score: 290
Period size: 96 Copynumber: 2.4 Consensus size: 96
17193133 GACATTTGGG
* * ** * * *
17193143 TGATATGTGTGCTAGTGTAAGGCCATGTCTGTAACATGGCATCGGCCACGATATAAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGACCACGATACAAGAGCCAATG
*
17193208 TAAGACCATGTTTGGAACATGGCATCGGCAT
66 TAAGACCATGTCTGGAACATGGCATCGGCAT
* *** *
17193239 TGATATGTGTGCTAGTGTAAGACCACGTTTGGGACATGGCATCGACCATTTTACGAGAGCCAATG
1 TGATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGACCACGATACAAGAGCCAATG
* *
17193304 TAAGACCATGTCTGGGACATGGCATCGGCCT
66 TAAGACCATGTCTGGAACATGGCATCGGCAT
* ** * *
17193335 CGGCATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATC
1 TGATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATC
17193378 AGTAATTTAC
Statistics
Matches: 118, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
96 118 1.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.26
Consensus pattern (96 bp):
TGATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGACCACGATACAAGAGCCAATG
TAAGACCATGTCTGGAACATGGCATCGGCAT
Found at i:17199282 original size:31 final size:31
Alignment explanation
Indices: 17199247--17199309 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
17199237 TAAGAAAGGA
17199247 AAATTAAGTCCACGTTTTATTGGACCTTATG
1 AAATTAAGTCCACGTTTTATTGGACCTTATG
17199278 AAATTAAGTCCACGTTTTATTGGACCTTATG
1 AAATTAAGTCCACGTTTTATTGGACCTTATG
17199309 A
1 A
17199310 GGTGACAGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (31 bp):
AAATTAAGTCCACGTTTTATTGGACCTTATG
Found at i:17206772 original size:155 final size:155
Alignment explanation
Indices: 17206175--17206772 Score: 606
Period size: 155 Copynumber: 3.9 Consensus size: 155
17206165 GACTATATGT
* ** ** * *
17206175 CGATGAGAGCTGGGCCCAAACTAATTACTTCGGACGTTCTGATGAGGTATTGGGTGCCAAATGGT
1 CGATGAGTGCTGGGTGCAAACTAATTACTTCAAACGTTCTGATGAGGCACTGGGTGCCAAATGGT
* * * * * * * *
17206240 TACTTCGACTACGTGCCGATGAGTACTAGGAAAAATTTTTGCTTCAGACGTTCCGATGAGTGTTG
66 TACTTCAACTACATGTCGATGAGTACTAGGCACAATTTTTACTTCGGACATTCCGATGAGTGTTG
*
17206305 GGCACAACATTTAATTC-AGTTATAC
131 GGCACAACATTTACTTCGA-TTATAC
* * * *
17206330 CGATGAGTACTGGGCGCAAACTAATTACTTCAGACGTTCTGATGAGGCACTGGATGCCAAATGGT
1 CGATGAGTGCTGGGTGCAAACTAATTACTTCAAACGTTCTGATGAGGCACTGGGTGCCAAATGGT
* * * *
17206395 TACTTCAACTACATGTCGATGAGTGCTGGGCACAATTTTTACTTCGGACATTTCGATGAGTGCTG
66 TACTTCAACTACATGTCGATGAGTACTAGGCACAATTTTTACTTCGGACATTCCGATGAGTGTTG
* * * *
17206460 GACACAACATTAACTTTGGTTATAC
131 GGCACAACATTTACTTCGATTATAC
* * * * * * * *
17206485 CGATAAGTGATGGGTGCAAACTAATTACTTCAAACATTCCGATGAGACACTAGGTGTCAAATAGT
1 CGATGAGTGCTGGGTGCAAACTAATTACTTCAAACGTTCTGATGAGGCACTGGGTGCCAAATGGT
* * * * * * *
17206550 TACTTCAACTATATGTTGATGAGTGCTAGGCACAATTTTTACTTCGGACGTTTCGATGGGTGATG
66 TACTTCAACTACATGTCGATGAGTACTAGGCACAATTTTTACTTCGGACATTCCGATGAGTGTTG
* *
17206615 GGCAAAACATTTACTCCGATTATAC
131 GGCACAACATTTACTTCGATTATAC
* * * *
17206640 CAATGAGCGCTAGGTGCAAACTAATTACTTCAAACGTT-TCGATGAGGCACTGGGTGTCAAATGG
1 CGATGAGTGCTGGGTGCAAACTAATTACTTCAAACGTTCT-GATGAGGCACTGGGTGCCAAATGG
* * * ** * * * * * * * *
17206704 ATAATTCGACTATGTTTTGAAGAGTACTGGGCACAATTTTTACTTCGGTCATACCGATAAGCGTT
65 TTACTTCAACTACATGTCGATGAGTACTAGGCACAATTTTTACTTCGGACATTCCGATGAGTGTT
17206769 GGGC
130 GGGC
17206773 GCAATCTATT
Statistics
Matches: 367, Mismatches: 74, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
155 367 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (155 bp):
CGATGAGTGCTGGGTGCAAACTAATTACTTCAAACGTTCTGATGAGGCACTGGGTGCCAAATGGT
TACTTCAACTACATGTCGATGAGTACTAGGCACAATTTTTACTTCGGACATTCCGATGAGTGTTG
GGCACAACATTTACTTCGATTATAC
Found at i:17207949 original size:30 final size:31
Alignment explanation
Indices: 17207915--17207977 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
17207905 CCTTTTCATG
17207915 TTTCATA-TTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
17207945 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
17207976 TT
1 TT
17207978 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:17208220 original size:24 final size:24
Alignment explanation
Indices: 17208169--17208334 Score: 248
Period size: 24 Copynumber: 7.0 Consensus size: 24
17208159 GCTTTATCAT
*
17208169 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
17208194 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
*
17208218 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
17208242 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
17208266 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
17208289 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
17208312 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
17208335 GCACTTCCTC
Statistics
Matches: 132, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
23 45 0.34
24 75 0.57
25 12 0.09
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:17208408 original size:20 final size:20
Alignment explanation
Indices: 17208380--17208444 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
17208370 GCATTTATGA
*
17208380 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
17208400 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
17208420 ACATTTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
17208440 ACATA
1 ACATA
17208445 CCATATTTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:17208415 original size:11 final size:11
Alignment explanation
Indices: 17208385--17208439 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
17208375 TATGAACATC
17208385 TCATGTGCATA
1 TCATGTGCATA
*
17208396 TCA--TACATA
1 TCATGTGCATA
17208405 TCATGTGCATA
1 TCATGTGCATA
* *
17208416 TCA--TACATT
1 TCATGTGCATA
17208425 TCATGTGCATA
1 TCATGTGCATA
17208436 TCAT
1 TCAT
17208440 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:17216101 original size:31 final size:31
Alignment explanation
Indices: 17216036--17216128 Score: 147
Period size: 31 Copynumber: 3.1 Consensus size: 31
17216026 GCCCTTTTCA
**
17216036 TTTTCATA-TTCATAACACTGGGCCGAA--C
1 TTTTCATATTTCATATTACTGGGCCGAAGCC
17216064 TTTTCATATTTCATATTACTGGGCCGAAGCC
1 TTTTCATATTTCATATTACTGGGCCGAAGCC
17216095 TTTTCATATTTCATATTACTGGGCCGAAGCC
1 TTTTCATATTTCATATTACTGGGCCGAAGCC
17216126 TTT
1 TTT
17216129 ACTGTAAACG
Statistics
Matches: 60, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
28 8 0.13
29 17 0.28
31 35 0.58
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.39
Consensus pattern (31 bp):
TTTTCATATTTCATATTACTGGGCCGAAGCC
Found at i:17216368 original size:24 final size:24
Alignment explanation
Indices: 17216317--17216441 Score: 166
Period size: 24 Copynumber: 5.2 Consensus size: 24
17216307 GCTTTATCAT
*
17216317 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
17216342 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
17216366 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
17216389 ATAACTGGGG-ATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
17216412 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
17216436 ATAACT
1 ATAACT
17216442 CATAAGCCTT
Statistics
Matches: 92, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
22 12 0.13
23 20 0.22
24 48 0.52
25 12 0.13
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:17216416 original size:46 final size:48
Alignment explanation
Indices: 17216317--17216441 Score: 166
Period size: 46 Copynumber: 2.6 Consensus size: 48
17216307 GCTTTATCAT
*
17216317 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
17216366 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGG-ATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
*
17216412 ATAACTGGGGCATAAGCCCTTTTGATAACT
1 ATAACTGGGGCATAAGCCCTTTTAATAACT
17216442 CATAAGCCTT
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
46 33 0.47
47 16 0.23
48 9 0.13
49 12 0.17
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:17216554 original size:20 final size:20
Alignment explanation
Indices: 17216529--17216588 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
17216519 TATGATTACC
17216529 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
17216549 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
17216569 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
17216589 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:17216559 original size:11 final size:11
Alignment explanation
Indices: 17216529--17216583 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
17216519 TATGATTACC
17216529 TCATGTGCATA
1 TCATGTGCATA
*
17216540 TCA--TACATA
1 TCATGTGCATA
17216549 TCATGTGCATA
1 TCATGTGCATA
* *
17216560 TCA--TACATT
1 TCATGTGCATA
17216569 TCATGTGCATA
1 TCATGTGCATA
17216580 TCAT
1 TCAT
17216584 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:17216663 original size:25 final size:25
Alignment explanation
Indices: 17216631--17216678 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17216621 ATACATAAAC
* * *
17216631 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
17216656 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
17216679 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:17221244 original size:31 final size:31
Alignment explanation
Indices: 17221206--17221269 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
17221196 CCTTTTCATA
17221206 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
17221237 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
17221268 TT
1 TT
17221270 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:17221512 original size:24 final size:24
Alignment explanation
Indices: 17221461--17221602 Score: 191
Period size: 24 Copynumber: 6.0 Consensus size: 24
17221451 GCTTTATCAT
*
17221461 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
17221486 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
*
17221510 ATAACTGGGGCATAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
*
17221534 ATAA--GGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
17221556 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
17221580 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
17221603 TCACTTCCTC
Statistics
Matches: 107, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
22 21 0.20
24 74 0.69
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:17221551 original size:46 final size:47
Alignment explanation
Indices: 17221461--17221601 Score: 178
Period size: 46 Copynumber: 3.0 Consensus size: 47
17221451 GCTTTATCAT
* *
17221461 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAAC-GGGGCATAAGCCCTTTCA
* **
17221510 ATAACTGGGGCATAAGCCCTTTTTATAA-GGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACGGGGCATAAGCCCTTTCA
*
17221556 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAAC-GGGGCATAAGCCCTTT
17221602 TTCACTTCCT
Statistics
Matches: 83, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
46 42 0.51
48 29 0.35
49 12 0.14
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACGGGGCATAAGCCCTTTCA
Found at i:17221675 original size:20 final size:20
Alignment explanation
Indices: 17221652--17221711 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
17221642 TTATGATTAC
17221652 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
17221672 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
*
17221692 TCATGTGCATCTCATACATA
1 TCATGTGCATATCATACATA
17221712 CCATATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:17221786 original size:25 final size:25
Alignment explanation
Indices: 17221754--17221801 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17221744 ATACATAAAC
* * *
17221754 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
17221779 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
17221802 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:17229405 original size:31 final size:31
Alignment explanation
Indices: 17229328--17229418 Score: 152
Period size: 31 Copynumber: 3.0 Consensus size: 31
17229318 CCTTTTCATA
17229328 TTCATATTTCATAATACT-GGCCGAAGCC-T
1 TTCATATTTCATAATACTGGGCCGAAGCCTT
17229357 TTCATA-TTCATAATACTGGGCCGAAGCCTT
1 TTCATATTTCATAATACTGGGCCGAAGCCTT
*
17229387 TTCATATTTCATATTACTGGGCCGAAGCCTT
1 TTCATATTTCATAATACTGGGCCGAAGCCTT
17229418 T
1 T
17229419 ACTGTAAACG
Statistics
Matches: 58, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
28 11 0.19
29 16 0.28
30 7 0.12
31 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.36
Consensus pattern (31 bp):
TTCATATTTCATAATACTGGGCCGAAGCCTT
Found at i:17229706 original size:46 final size:46
Alignment explanation
Indices: 17229628--17229742 Score: 175
Period size: 46 Copynumber: 2.5 Consensus size: 46
17229618 AGGCCTAGCC
17229628 TTTATACT-GGGC--AAGCCC-TTTAATAACTGGGGCATAAGCCCT
1 TTTATACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
*
17229670 TTTATACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCT
1 TTTATACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
17229716 TTTGATAACTGGGGCATAAGCCCTTTT
1 TTT-AT-ACTGGGGCATAAGCCCTTTT
17229743 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
42 8 0.12
43 4 0.06
45 6 0.09
46 26 0.39
47 2 0.03
48 20 0.30
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (46 bp):
TTTATACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
Found at i:17229707 original size:24 final size:24
Alignment explanation
Indices: 17229640--17229742 Score: 176
Period size: 24 Copynumber: 4.4 Consensus size: 24
17229630 TATACTGGGC
*
17229640 AAGCCC-TTTAATAACTGGGGCAT
1 AAGCCCTTTTGATAACTGGGGCAT
17229663 AAGCCCTTTT-AT-ACTGGGGCAT
1 AAGCCCTTTTGATAACTGGGGCAT
17229685 AAGCCCTTTTGATAACTGGGGCAT
1 AAGCCCTTTTGATAACTGGGGCAT
17229709 AAGCCCTTTTGATAACTGGGGCAT
1 AAGCCCTTTTGATAACTGGGGCAT
17229733 AAGCCCTTTT
1 AAGCCCTTTT
17229743 TCACTTCCTC
Statistics
Matches: 77, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
22 20 0.26
23 10 0.13
24 47 0.61
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (24 bp):
AAGCCCTTTTGATAACTGGGGCAT
Found at i:17229814 original size:20 final size:20
Alignment explanation
Indices: 17229791--17229851 Score: 97
Period size: 20 Copynumber: 3.0 Consensus size: 20
17229781 TTATGATTAC
17229791 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
17229811 ATCATGTGCATATCATACATT
1 ATCATGTGCATATCATACA-T
*
17229832 GTCATGTGCAT-TCATACAT
1 ATCATGTGCATATCATACAT
17229851 A
1 A
17229852 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
19 1 0.03
20 26 0.68
21 11 0.29
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:17229926 original size:25 final size:25
Alignment explanation
Indices: 17229894--17229941 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17229884 ATACATAAAC
* * *
17229894 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
17229919 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
17229942 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:17230780 original size:30 final size:31
Alignment explanation
Indices: 17230744--17230806 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
17230734 CCTTTTCATA
17230744 TTTCATA-TTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
17230774 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
17230805 TT
1 TT
17230807 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:17231075 original size:22 final size:22
Alignment explanation
Indices: 17230997--17231156 Score: 209
Period size: 24 Copynumber: 7.0 Consensus size: 22
17230987 TGCTTTATCA
*
17230997 TATAACTGGAGGCCT-AGCCTCTTT
1 TATAACTGG-GGCATAAGCC-C-TT
*
17231021 TAATAACTGGGGCAAAAGCCCTT
1 T-ATAACTGGGGCATAAGCCCTT
17231044 TCAATAACTGGGGCATAAGCCCTT
1 T--ATAACTGGGGCATAAGCCCTT
17231068 TATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCC-TT
17231091 TGATAACTGGGGCATAAGCCCTT
1 T-ATAACTGGGGCATAAGCCCTT
17231114 T-TAACT-GGGCATAAGCCCTT
1 TATAACTGGGGCATAAGCCCTT
17231134 TATAACTGGGGCATAAGCCCTT
1 TATAACTGGGGCATAAGCCCTT
17231156 T
1 T
17231157 TTCACTTCCT
Statistics
Matches: 126, Mismatches: 3, Indels: 16
0.87 0.02 0.11
Matches are distributed among these distances:
20 15 0.12
21 10 0.08
22 34 0.27
23 9 0.07
24 46 0.37
25 12 0.10
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (22 bp):
TATAACTGGGGCATAAGCCCTT
Found at i:17231076 original size:46 final size:44
Alignment explanation
Indices: 17230997--17231156 Score: 209
Period size: 46 Copynumber: 3.5 Consensus size: 44
17230987 TGCTTTATCA
* *
17230997 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTT
1 TATAACTGG-GGCATAAGCC-C-TTT-ATAACTGGGGCATAAGCCCTT
17231044 TCAATAACTGGGGCATAAGCCCTTTATAACTGGGGCATAAGCCCTTT
1 T--ATAACTGGGGCATAAGCCCTTTATAACTGGGGCATAAGCCC-TT
17231091 TGATAACTGGGGCATAAGCCCTTT-TAACT-GGGCATAAGCCCTT
1 T-ATAACTGGGGCATAAGCCCTTTATAACTGGGGCATAAGCCCTT
17231134 TATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
17231157 TTCACTTCCT
Statistics
Matches: 106, Mismatches: 3, Indels: 13
0.87 0.02 0.11
Matches are distributed among these distances:
42 22 0.21
43 3 0.03
44 12 0.11
45 5 0.05
46 40 0.38
47 7 0.07
48 5 0.05
49 12 0.11
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (44 bp):
TATAACTGGGGCATAAGCCCTTTATAACTGGGGCATAAGCCCTT
Found at i:17231237 original size:11 final size:11
Alignment explanation
Indices: 17231207--17231260 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
17231197 TTATGATTAC
17231207 TCATGTGCATA
1 TCATGTGCATA
*
17231218 TCA--TACATA
1 TCATGTGCATA
17231227 TCATGTGCATA
1 TCATGTGCATA
*
17231238 TCA--TACAT-
1 TCATGTGCATA
17231246 TCATGTGCATA
1 TCATGTGCATA
17231257 TCAT
1 TCAT
17231261 ACATACCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
8 3 0.09
9 12 0.35
10 4 0.12
11 15 0.44
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:17231251 original size:19 final size:20
Alignment explanation
Indices: 17231207--17231265 Score: 111
Period size: 19 Copynumber: 3.0 Consensus size: 20
17231197 TTATGATTAC
17231207 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
17231227 TCATGTGCATATCATACAT-
1 TCATGTGCATATCATACATA
17231246 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
17231266 CCATATTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.50
20 19 0.50
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:17231335 original size:25 final size:25
Alignment explanation
Indices: 17231307--17231354 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17231297 ATACATAAAC
* * *
17231307 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
17231332 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
17231355 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:17238905 original size:30 final size:31
Alignment explanation
Indices: 17238818--17238934 Score: 168
Period size: 30 Copynumber: 3.7 Consensus size: 31
17238808 CCAATCTCAA
*
17238818 CATA-TACTGGGCC-ATAGCCCTTTTCATGTTT
1 CATATTACTGGGCCGA-AG-CCTTTTCATATTT
17238849 CATATTTCACTGGGCCGAAGCCTTTTCATATTT
1 CATA-TT-ACTGGGCCGAAGCCTTTTCATATTT
17238882 CATATTACTGGGCCGAA-CCTTTTCATATTT
1 CATATTACTGGGCCGAAGCCTTTTCATATTT
17238912 CATATTACTGGGCCGAAGCCTTT
1 CATATTACTGGGCCGAAGCCTTT
17238935 ACTGTAAACG
Statistics
Matches: 80, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
30 30 0.38
31 20 0.25
32 2 0.03
33 17 0.21
34 10 0.12
35 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (31 bp):
CATATTACTGGGCCGAAGCCTTTTCATATTT
Found at i:17239176 original size:24 final size:24
Alignment explanation
Indices: 17239125--17239307 Score: 233
Period size: 24 Copynumber: 8.0 Consensus size: 24
17239115 GCTTTATCAT
*
17239125 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
17239150 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
17239174 ATAACTGGGGCATAAGCCC-----
1 ATAACTGGGGCATAAGCCCTTTTA
17239193 ATAACT-GGGCATAAGCCC-TTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
17239214 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
17239238 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
17239262 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
17239285 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
17239308 CACTTCCTCC
Statistics
Matches: 145, Mismatches: 5, Indels: 17
0.87 0.03 0.10
Matches are distributed among these distances:
18 12 0.08
19 6 0.04
21 6 0.04
22 12 0.08
23 25 0.17
24 72 0.50
25 12 0.08
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:17239231 original size:64 final size:67
Alignment explanation
Indices: 17239124--17239306 Score: 239
Period size: 64 Copynumber: 2.7 Consensus size: 67
17239114 TGCTTTATCA
* *
17239124 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 TATAACTGG-GGCATAAGCC-C-TTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATA
17239188 AGCCC
63 AGCCC
**
17239193 -ATAACT-GGGCATAAGCCCTTT-ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 TATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATAAGC
17239255 CC
66 CC
17239257 TTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTT
1 ---T-ATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTT
17239307 TCACTTCCTC
Statistics
Matches: 102, Mismatches: 4, Indels: 14
0.85 0.03 0.12
Matches are distributed among these distances:
64 40 0.39
65 3 0.03
66 5 0.05
67 5 0.05
68 6 0.06
69 6 0.06
70 15 0.15
71 22 0.22
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (67 bp):
TATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATAAGC
CC
Found at i:17239246 original size:88 final size:91
Alignment explanation
Indices: 17239124--17239306 Score: 257
Period size: 88 Copynumber: 2.0 Consensus size: 91
17239114 TGCTTTATCA
*
17239124 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
17239189 GCCC-ATAACT-GGGCATAAGCCCTT
66 GCCCTATAACTGGGGCATAAGCCCTT
* * **
17239213 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
17239276 AGCCCTTTAATAACTGGGGCATAAGCCCTT
65 AGCCC--T-ATAACTGGGGCATAAGCCCTT
17239306 T
1 T
17239307 TCACTTCCTC
Statistics
Matches: 83, Mismatches: 5, Indels: 8
0.86 0.05 0.08
Matches are distributed among these distances:
88 49 0.59
89 13 0.16
92 6 0.07
93 15 0.18
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (91 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTATAACTGGGGCATAAGCCCTT
Found at i:17239380 original size:20 final size:20
Alignment explanation
Indices: 17239352--17239416 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
17239342 GCATTTATGA
*
17239352 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
17239372 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
17239392 ACATTTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
17239412 ACATA
1 ACATA
17239417 CCATATTTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:17239387 original size:11 final size:11
Alignment explanation
Indices: 17239357--17239411 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
17239347 TATGAACATC
17239357 TCATGTGCATA
1 TCATGTGCATA
*
17239368 TCA--TACATA
1 TCATGTGCATA
17239377 TCATGTGCATA
1 TCATGTGCATA
* *
17239388 TCA--TACATT
1 TCATGTGCATA
17239397 TCATGTGCATA
1 TCATGTGCATA
17239408 TCAT
1 TCAT
17239412 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:17239491 original size:25 final size:25
Alignment explanation
Indices: 17239459--17239506 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17239449 ATACATAAAC
* * *
17239459 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
17239484 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
17239507 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:17241228 original size:2 final size:2
Alignment explanation
Indices: 17241223--17241250 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17241213 TGCATATATA
17241223 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
17241251 GATCATGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:17242798 original size:48 final size:46
Alignment explanation
Indices: 17242696--17242917 Score: 236
Period size: 48 Copynumber: 4.7 Consensus size: 46
17242686 TCATTTGTAT
*
17242696 GCTAGTGTAAGACATGTCTGGGACATGCATCGGTCACATT---ATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG---CATTGAGACGAGA
17242742 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGACGAGA
* * *
17242790 GTTGGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGACGAGA
* * * * * *
17242838 GCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCGTGATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACG-AGA
* *
17242884 GCCAGTGTAAGACATGTCTGGGACATGCGTCGGC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
17242918 TACGAGATGT
Statistics
Matches: 153, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
45 4 0.03
46 54 0.35
47 28 0.18
48 67 0.44
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGA
Found at i:17244290 original size:20 final size:21
Alignment explanation
Indices: 17244251--17244290 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17244241 GTTATAACGA
17244251 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
* *
17244272 CCACATGGGTGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
17244291 ATTTCAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.35, G:0.30, T:0.25
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:17250769 original size:50 final size:49
Alignment explanation
Indices: 17250657--17250884 Score: 211
Period size: 50 Copynumber: 4.7 Consensus size: 49
17250647 CTCGTGATGT
* * *
17250657 AAGCCAGTGTAAGA-CATGTCTAGGACAT-GCGTCAGCTACGAGATGT--
1 AAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCT-GGAGATGTGA
* *
17250703 --GTCAGTGTAAGACCATGTCTAGGACATGGCATCAGCGTGGAGATGTGA
1 AAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC-TGGAGATGTGA
** *
17250751 AAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGGAGATGTGA
1 AAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC-TGGAGATGTGA
* * * * * *
17250801 GAGCCAGTGTAAGACCATGACTGGGACATGGCGTCGGCCT-CA-ATTTTGA
1 AAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-CTGGAGA-TGTGA
* *
17250850 TAGTCAGTGTAAGACCATGTCTGGGACATGGCATC
1 AAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
17250885 GGCATTACAC
Statistics
Matches: 153, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
44 11 0.07
45 14 0.09
46 14 0.09
47 1 0.01
48 1 0.01
49 36 0.24
50 75 0.49
51 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.22
Consensus pattern (49 bp):
AAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCTGGAGATGTGA
Found at i:17260337 original size:21 final size:22
Alignment explanation
Indices: 17260291--17260337 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
17260281 TAAATTGATT
*
17260291 TTAAAACTTTAAAATATTCCAA
1 TTAAAACTTTAAAATATTCAAA
* *
17260313 TTAAAATTTTAAAGTATT-AAA
1 TTAAAACTTTAAAATATTCAAA
17260334 TTAA
1 TTAA
17260338 TCAAATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.40
Consensus pattern (22 bp):
TTAAAACTTTAAAATATTCAAA
Found at i:17269392 original size:2 final size:2
Alignment explanation
Indices: 17269385--17269410 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17269375 GTTTGTCTTG
17269385 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
17269411 TCAATGTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17270099 original size:15 final size:16
Alignment explanation
Indices: 17270081--17270122 Score: 70
Period size: 15 Copynumber: 2.8 Consensus size: 16
17270071 CAAAATAAAC
17270081 AAATCCAAGATAGAA-
1 AAATCCAAGATAGAAG
17270096 AAATCCAAGAT-GAAG
1 AAATCCAAGATAGAAG
17270111 AAATCCAAGATA
1 AAATCCAAGATA
17270123 CAGAAGTCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.12
15 22 0.88
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.14
Consensus pattern (16 bp):
AAATCCAAGATAGAAG
Found at i:17270127 original size:15 final size:14
Alignment explanation
Indices: 17270081--17270127 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 14
17270071 CAAAATAAAC
*
17270081 AAATCCAAGATAGAA
1 AAATCCAAGATA-AG
17270096 AAATCCAAGATGAAG
1 AAATCCAAGAT-AAG
17270111 AAATCCAAGATACAG
1 AAATCCAAGATA-AG
17270126 AA
1 AA
17270128 GTCTAATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 1 0.03
15 27 0.93
16 1 0.03
ACGTcount: A:0.57, C:0.15, G:0.15, T:0.13
Consensus pattern (14 bp):
AAATCCAAGATAAG
Found at i:17274610 original size:27 final size:26
Alignment explanation
Indices: 17274573--17274738 Score: 208
Period size: 27 Copynumber: 6.2 Consensus size: 26
17274563 AGCATGGCTG
* *
17274573 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
17274599 CCAGATACAGATAATCGTGGC-GTAGCCA
1 CCAGA-ACAGATAAT-GTGGCAG-AGCCA
17274627 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
17274654 CCAGATCAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
*
17274681 CCAGAACAGATATAAGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
17274708 CCAGATCAGATAATCGTGGCATAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
17274735 CCAG
1 CCAG
17274739 GACGCTTCCT
Statistics
Matches: 124, Mismatches: 8, Indels: 15
0.84 0.05 0.10
Matches are distributed among these distances:
26 8 0.06
27 99 0.80
28 17 0.14
ACGTcount: A:0.36, C:0.24, G:0.25, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:17274632 original size:54 final size:54
Alignment explanation
Indices: 17274573--17274738 Score: 264
Period size: 54 Copynumber: 3.1 Consensus size: 54
17274563 AGCATGGCTG
* *
17274573 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCGTAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATCGTGGCGTAGCCA
17274627 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAG-AGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGC-GTAGCCA
* *
17274681 CCAGAACAGATATAAGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCGTAGCCA
17274735 CCAG
1 CCAG
17274739 GACGCTTCCT
Statistics
Matches: 105, Mismatches: 4, Indels: 6
0.91 0.03 0.05
Matches are distributed among these distances:
54 86 0.82
55 19 0.18
ACGTcount: A:0.36, C:0.24, G:0.25, T:0.15
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCGTAGCCA
Found at i:17280487 original size:111 final size:111
Alignment explanation
Indices: 17280293--17280521 Score: 449
Period size: 111 Copynumber: 2.1 Consensus size: 111
17280283 AAGGTTAGAA
17280293 ACTCTTTATGCGACTAAGTCTTTAGCTAACCATTTAGTGTTGAAACAACGTCTATTTACGTTTCG
1 ACTCTTTATGCGACTAAGTCTTTAGCTAACCATTTAGTGTTGAAACAACGTCTATTTACGTTTCG
17280358 CATGAACGAATGTGAGCTTCTTAGAGATCACATCAGTCAATTCATT
66 CATGAACGAATGTGAGCTTCTTAGAGATCACATCAGTCAATTCATT
*
17280404 ACTCTTTATGCGACTAAGTCTTTAGCTAACCGTTTAGTGTTGAAACAACGTCTATTTACGTTTCG
1 ACTCTTTATGCGACTAAGTCTTTAGCTAACCATTTAGTGTTGAAACAACGTCTATTTACGTTTCG
17280469 CATGAACGAATGTGAGCTTCTTAGAGATCACATCAGTCAATTCATT
66 CATGAACGAATGTGAGCTTCTTAGAGATCACATCAGTCAATTCATT
17280515 ACTCTTT
1 ACTCTTT
17280522 TAAATGATTT
Statistics
Matches: 117, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 117 1.00
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (111 bp):
ACTCTTTATGCGACTAAGTCTTTAGCTAACCATTTAGTGTTGAAACAACGTCTATTTACGTTTCG
CATGAACGAATGTGAGCTTCTTAGAGATCACATCAGTCAATTCATT
Found at i:17284823 original size:20 final size:21
Alignment explanation
Indices: 17284798--17284838 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
17284788 TGATTGATTC
17284798 ACATTT-ACCTAAAAATACCA
1 ACATTTAACCTAAAAATACCA
17284818 ACATTTAACACCTAAAAATAC
1 ACATTT-A-ACCTAAAAATAC
17284839 TAATCAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
23 12 0.67
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (21 bp):
ACATTTAACCTAAAAATACCA
Found at i:17287933 original size:21 final size:22
Alignment explanation
Indices: 17287907--17287950 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
17287897 TAGTCAACAG
17287907 AAAATGGGAAAAAGAG-AAGAT
1 AAAATGGGAAAAAGAGAAAGAT
* *
17287928 AAAATGTGAAAGAGAGAAAGAT
1 AAAATGGGAAAAAGAGAAAGAT
17287950 A
1 A
17287951 GGAGAACCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.61, C:0.00, G:0.27, T:0.11
Consensus pattern (22 bp):
AAAATGGGAAAAAGAGAAAGAT
Found at i:17288240 original size:1 final size:1
Alignment explanation
Indices: 17288234--17288258 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
17288224 GGAGTCTATG
17288234 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
17288259 GGTTTTCCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:17295224 original size:23 final size:23
Alignment explanation
Indices: 17295196--17295243 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
17295186 TTAGGGTTTA
17295196 TTTTAGGTTTTGAAT-TTGGGCTT
1 TTTTAGGTTTTGAATCTTGGG-TT
* *
17295219 TTTTAGTTTTTGCATCTTGGGTT
1 TTTTAGGTTTTGAATCTTGGGTT
17295242 TT
1 TT
17295244 AAATGGGGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.10, C:0.06, G:0.23, T:0.60
Consensus pattern (23 bp):
TTTTAGGTTTTGAATCTTGGGTT
Found at i:17309359 original size:22 final size:23
Alignment explanation
Indices: 17309334--17309378 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
17309324 ATATGAAAAT
17309334 TTAAAATTTAC-TTGTTAAATAA
1 TTAAAATTTACATTGTTAAATAA
* *
17309356 TTAACATTTACATTTTTAAATAA
1 TTAAAATTTACATTGTTAAATAA
17309379 ATTACTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (23 bp):
TTAAAATTTACATTGTTAAATAA
Found at i:17315178 original size:2 final size:2
Alignment explanation
Indices: 17315171--17315207 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
17315161 AGCCTTTTTG
17315171 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
17315208 CGGGAGGAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:17321124 original size:29 final size:28
Alignment explanation
Indices: 17321087--17321142 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
17321077 ATTACATTTT
* *
17321087 ATTATTTTTTAAAATATTTATATTTTAAG
1 ATTAATTTTTAAAATATATAT-TTTTAAG
17321116 ATTAATTTTTAAAATATATATTTTTAA
1 ATTAATTTTTAAAATATATATTTTTAA
17321143 ATATTGAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (28 bp):
ATTAATTTTTAAAATATATATTTTTAAG
Found at i:17321146 original size:14 final size:15
Alignment explanation
Indices: 17321092--17321143 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
17321082 ATTTTATTAT
*
17321092 TTTTTAAAATATTTA
1 TTTTTAAAATATATA
*
17321107 TATTTTAAGAT-TA-A
1 T-TTTTAAAATATATA
17321121 TTTTTAAAATATATA
1 TTTTTAAAATATATA
17321136 TTTTTAAA
1 TTTTTAAA
17321144 TATTGAACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 8 0.26
14 4 0.13
15 11 0.35
16 8 0.26
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
TTTTTAAAATATATA
Found at i:17333565 original size:18 final size:18
Alignment explanation
Indices: 17333542--17333578 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
17333532 CAAATGAGAG
17333542 ACTGTTTTTATTAAATCA
1 ACTGTTTTTATTAAATCA
*
17333560 ACTGTTTTTATTGAATCA
1 ACTGTTTTTATTAAATCA
17333578 A
1 A
17333579 GGTTGTATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (18 bp):
ACTGTTTTTATTAAATCA
Found at i:17335606 original size:48 final size:49
Alignment explanation
Indices: 17335523--17335648 Score: 139
Period size: 48 Copynumber: 2.6 Consensus size: 49
17335513 TGACACAATA
* * * * * *
17335523 GCCAGTGTAGGACCATGTCTGGGACATGTCTTCGGCATTGATATGT-AT
1 GCCAGTGTAAGACCATATCTGGGATATGGCATCGGCATCGATATGTGAT
* *
17335571 GCCAGTGTAAGACCATATCTGGGATATGGCATCGGCCTCGGTATGTGAT
1 GCCAGTGTAAGACCATATCTGGGATATGGCATCGGCATCGATATGTGAT
** *
17335620 TTCA-TGTGAGACCATATCTGGGATATGGC
1 GCCAGTGTAAGACCATATCTGGGATATGGC
17335649 GTTGATATGA
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
48 62 0.94
49 4 0.06
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (49 bp):
GCCAGTGTAAGACCATATCTGGGATATGGCATCGGCATCGATATGTGAT
Found at i:17335676 original size:42 final size:42
Alignment explanation
Indices: 17335575--17335789 Score: 142
Period size: 42 Copynumber: 4.8 Consensus size: 42
17335565 ATGTATGCCA
* *
17335575 GTGTAAGACCATATCTGGGATATGGCATCGGCCTCGGTATGTGATTTC
1 GTGTAAGACCATATCTGGGATATGGCA------TCGATATGAGATTTC
* * * *
17335623 ATGTGAGACCATATCTGGGATATGGCGTTGATATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTC
* * * * * * **
17335665 GTGTAAGACCATGTCTCGGACATGACATCAATATGAGGTCCC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTC
* * *
17335707 GTGTAAGACCATGTCTGGGACATGGCATTGGCACCGATGTGAGATTTC
1 GTGTAAGACCATATCTGGG--AT---A-TGGCATCGATATGAGATTTC
* * *
17335755 GTATAAGACCATATCTAGGATATGGCATCAATATG
1 GTGTAAGACCATATCTGGGATATGGCATCGATATG
17335790 TAGACCCATG
Statistics
Matches: 128, Mismatches: 33, Indels: 18
0.72 0.18 0.10
Matches are distributed among these distances:
42 70 0.55
43 1 0.01
44 1 0.01
46 2 0.02
47 1 0.01
48 53 0.41
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTC
Found at i:17335752 original size:90 final size:90
Alignment explanation
Indices: 17335656--17335829 Score: 251
Period size: 90 Copynumber: 1.9 Consensus size: 90
17335646 GGCGTTGATA
* * * * *
17335656 TGAGATTTCGTGTAAGACCATGTCTCGGACATGACATCAATATG-AGGTCCCGTGTAAGACCATG
1 TGAGATTTCGTATAAGACCATATCTAGGACATGACATCAATATGTA-GACCCATGTAAGACCATG
*
17335720 TCTGGGACATGGCATTGGCACCGATG
65 TCTAGGACATGGCATTGGCACCGATG
* *
17335746 TGAGATTTCGTATAAGACCATATCTAGGATATGGCATCAATATGTAGACCCATGTAAGACCATGT
1 TGAGATTTCGTATAAGACCATATCTAGGACATGACATCAATATGTAGACCCATGTAAGACCATGT
*
17335811 CTAGGACATGGCTTTGGCA
66 CTAGGACATGGCATTGGCA
17335830 TTCTATATGG
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
90 73 0.99
91 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (90 bp):
TGAGATTTCGTATAAGACCATATCTAGGACATGACATCAATATGTAGACCCATGTAAGACCATGT
CTAGGACATGGCATTGGCACCGATG
Found at i:17335753 original size:132 final size:132
Alignment explanation
Indices: 17335575--17335820 Score: 307
Period size: 132 Copynumber: 1.9 Consensus size: 132
17335565 ATGTATGCCA
* * * * * *
17335575 GTGTAAGACCATATCTGGGATATGGCATCGGCCTCGGTATGTGATTTCATGTGAGACCATATCTG
1 GTGTAAGACCATATCTGGGACATGGCATCGGCCTCGATATGAGATTTCATATAAGACCATATCTA
* ** ** * *
17335640 GGATATGGCGTTGATATG-AGATTTCGTGTAAGACCATGTCTCGGACATGACATCAATATGAGGT
66 GGATATGGCATCAATATGTAGA-CCCATGTAAGACCATGTCTAGGACATGACATCAATATGAGGT
17335704 CCC
130 CCC
* * * *
17335707 GTGTAAGACCATGTCTGGGACATGGCATTGGCAC-CGATGTGAGATTTCGTATAAGACCATATCT
1 GTGTAAGACCATATCTGGGACATGGCATCGGC-CTCGATATGAGATTTCATATAAGACCATATCT
17335771 AGGATATGGCATCAATATGTAGACCCATGTAAGACCATGTCTAGGACATG
65 AGGATATGGCATCAATATGTAGACCCATGTAAGACCATGTCTAGGACATG
17335821 GCTTTGGCAT
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
132 91 0.96
133 4 0.04
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (132 bp):
GTGTAAGACCATATCTGGGACATGGCATCGGCCTCGATATGAGATTTCATATAAGACCATATCTA
GGATATGGCATCAATATGTAGACCCATGTAAGACCATGTCTAGGACATGACATCAATATGAGGTC
CC
Found at i:17337457 original size:31 final size:31
Alignment explanation
Indices: 17337419--17337498 Score: 160
Period size: 31 Copynumber: 2.6 Consensus size: 31
17337409 CGATTTCTCT
17337419 TGGACTCACACGCCCGTGCAGGTGGGTCGTG
1 TGGACTCACACGCCCGTGCAGGTGGGTCGTG
17337450 TGGACTCACACGCCCGTGCAGGTGGGTCGTG
1 TGGACTCACACGCCCGTGCAGGTGGGTCGTG
17337481 TGGACTCACACGCCCGTG
1 TGGACTCACACGCCCGTG
17337499 TGGCTTGGGG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.14, C:0.31, G:0.36, T:0.19
Consensus pattern (31 bp):
TGGACTCACACGCCCGTGCAGGTGGGTCGTG
Found at i:17343749 original size:18 final size:17
Alignment explanation
Indices: 17343722--17343755 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
17343712 TGGTCTTATT
17343722 CATTGCTTTGCCTAAAA
1 CATTGCTTTGCCTAAAA
*
17343739 CATTAGCTTTGCTTAAA
1 CATT-GCTTTGCCTAAA
17343756 GTATTTTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (17 bp):
CATTGCTTTGCCTAAAA
Found at i:17346824 original size:12 final size:12
Alignment explanation
Indices: 17346807--17346833 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
17346797 ACAACTCTTA
17346807 TTTTATTATTAT
1 TTTTATTATTAT
17346819 TTTTATTATTAT
1 TTTTATTATTAT
17346831 TTT
1 TTT
17346834 AGAGACATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:17350486 original size:30 final size:30
Alignment explanation
Indices: 17350386--17350495 Score: 104
Period size: 29 Copynumber: 3.8 Consensus size: 30
17350376 AAATTTAATA
* * * *
17350386 AAAATTTTAATAATATTAACATTTAAA-CTT
1 AAAATTTTAAAAATA-TAAAAATTAAATTTT
**
17350416 -AAATTTT-AAAATATAAAAAAGAAATTTTT
1 AAAATTTTAAAAATATAAAAATTAAA-TTTT
*
17350445 AAAA--ATAAAAATATAAAAATTAAATTTT
1 AAAATTTTAAAAATATAAAAATTAAATTTT
17350473 AAAATTTTAAAAATATAAAAATT
1 AAAATTTTAAAAATATAAAAATT
17350496 TAGAAGATAT
Statistics
Matches: 64, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
27 7 0.11
28 14 0.22
29 24 0.38
30 19 0.30
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (30 bp):
AAAATTTTAAAAATATAAAAATTAAATTTT
Found at i:17350505 original size:17 final size:16
Alignment explanation
Indices: 17350450--17350497 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
17350440 TTTTTAAAAA
17350450 TAAAAATATAAAAA-T
1 TAAAAATATAAAAATT
* * *
17350465 T-AAATTTTAAAATTT
1 TAAAAATATAAAAATT
17350480 TAAAAATATAAAAATT
1 TAAAAATATAAAAATT
17350496 TA
1 TA
17350498 GAAGATATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
14 9 0.36
15 3 0.12
16 13 0.52
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAAAATATAAAAATT
Found at i:17352270 original size:8 final size:7
Alignment explanation
Indices: 17352246--17352287 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
17352236 TTGACACCGG
17352246 TTTT-TC
1 TTTTCTC
*
17352252 TTTTTTC
1 TTTTCTC
17352259 TTTTCTC
1 TTTTCTC
17352266 GTTTTCTC
1 -TTTTCTC
17352274 TTCTTCTC
1 TT-TTCTC
17352282 TTTTCT
1 TTTTCT
17352288 TGGTTTTCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
6 4 0.12
7 14 0.44
8 14 0.44
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.74
Consensus pattern (7 bp):
TTTTCTC
Found at i:17352275 original size:15 final size:15
Alignment explanation
Indices: 17352250--17352287 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
17352240 CACCGGTTTT
*
17352250 TCTTTTTTCTT-TTC
1 TCTTTTCTCTTCTTC
17352264 TCGTTTTCTCTTCTTC
1 TC-TTTTCTCTTCTTC
17352280 TCTTTTCT
1 TCTTTTCT
17352288 TGGTTTTCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 14 0.67
16 5 0.24
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (15 bp):
TCTTTTCTCTTCTTC
Found at i:17353550 original size:35 final size:35
Alignment explanation
Indices: 17353486--17353556 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
17353476 CATATCCGGA
* *
17353486 GCTTGGCAAATATGGAAAGTAATGTTCAAATATAT
1 GCTTGGCAAATATGGAAAGGAATGTTCAAAGATAT
* *
17353521 GCTTGGCAAATATGGAAGGGGATCG-TCAAAGATAT
1 GCTTGGCAAATATGGAAAGGAAT-GTTCAAAGATAT
17353556 G
1 G
17353557 TGATCCTAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 30 0.97
36 1 0.03
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.27
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAAGGAATGTTCAAAGATAT
Found at i:17359475 original size:25 final size:27
Alignment explanation
Indices: 17359438--17359490 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
17359428 TCAAACATGC
17359438 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
17359464 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
17359490 A
1 A
17359491 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:17359791 original size:16 final size:16
Alignment explanation
Indices: 17359770--17359805 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
17359760 AAAATACCGG
17359770 TTTTCGGCATTTCAGC
1 TTTTCGGCATTTCAGC
*
17359786 TTTTCGGCTTTTCAGC
1 TTTTCGGCATTTCAGC
17359802 TTTT
1 TTTT
17359806 GCCGATCTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.08, C:0.22, G:0.17, T:0.53
Consensus pattern (16 bp):
TTTTCGGCATTTCAGC
Found at i:17369468 original size:35 final size:35
Alignment explanation
Indices: 17369429--17369499 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 35
17369419 CATCTCCGGA
*
17369429 GCTTGGCAAATATGGAAAGT-AATCTTCAAAGATAT
1 GCTTGGAAAATATGG-AAGTGAATCTTCAAAGATAT
*
17369464 GCTTGGAAAATATGGAAGTGGATCTTCAAAGATAT
1 GCTTGGAAAATATGGAAGTGAATCTTCAAAGATAT
17369499 G
1 G
17369500 TGATCCTAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 4 0.12
35 29 0.88
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (35 bp):
GCTTGGAAAATATGGAAGTGAATCTTCAAAGATAT
Found at i:17371911 original size:30 final size:26
Alignment explanation
Indices: 17371856--17371907 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
17371846 GTGATTAAAA
17371856 GATGTTAGTTGACATTGTACATATAT
1 GATGTTAGTTGACATTGTACATATAT
17371882 GATGTTAGTTGACATTGTACATATAT
1 GATGTTAGTTGACATTGTACATATAT
17371908 ATATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (26 bp):
GATGTTAGTTGACATTGTACATATAT
Found at i:17372457 original size:28 final size:28
Alignment explanation
Indices: 17372390--17372491 Score: 107
Period size: 28 Copynumber: 3.5 Consensus size: 28
17372380 GACAAGATTG
* * * *
17372390 GCACTAACTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGGGTTT--GATTATATA
17372420 GCACTAAGTGTGCGGGTTTGATTATATA
1 GCACTAAGTGTGCGGGTTTGATTATATA
* *
17372448 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGGGTTTG-AT-TATATA
17372477 GCACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
17372492 ATTCACTATA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.37
29 20 0.32
30 18 0.29
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGGGTTTGATTATATA
Found at i:17372484 original size:29 final size:28
Alignment explanation
Indices: 17372419--17372490 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
17372409 AAAATTGTAC
* *
17372419 AGCACTAAGTGTGCGGGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
17372447 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
17372476 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
17372491 GATTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 18 0.45
29 20 0.50
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:17380588 original size:2 final size:2
Alignment explanation
Indices: 17380581--17380612 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
17380571 TCACTAGGTC
17380581 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17380613 CAAATATACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17381352 original size:44 final size:44
Alignment explanation
Indices: 17381250--17381387 Score: 169
Period size: 42 Copynumber: 3.2 Consensus size: 44
17381240 TAATCAAATA
* * * *
17381250 TCGATGCCATTGTCCCAAATAGGGTCTTACACG-AAATTA-AATG
1 TCGATGCCAATGTCCCAAACATGGTCTTACACGTAAATCATAA-G
*
17381293 T-GATGCCGATGTCCCAAACATGGTCTTACACGTAAATCATAAG
1 TCGATGCCAATGTCCCAAACATGGTCTTACACGTAAATCATAAG
* *
17381336 TCGATGCCAATGTCCCAAACGTGG--TTACACATAAATCATAAG
1 TCGATGCCAATGTCCCAAACATGGTCTTACACGTAAATCATAAG
17381378 TCGATGCCAA
1 TCGATGCCAA
17381388 CTTCTAAGAT
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
42 54 0.64
43 8 0.10
44 22 0.26
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.25
Consensus pattern (44 bp):
TCGATGCCAATGTCCCAAACATGGTCTTACACGTAAATCATAAG
Found at i:17385353 original size:2 final size:2
Alignment explanation
Indices: 17385346--17385371 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17385336 ATTTTATCAA
17385346 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
17385372 TTTAATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17385907 original size:3 final size:3
Alignment explanation
Indices: 17385899--17385928 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
17385889 CTTTTTCATT
17385899 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17385929 AGGAGATGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:17387206 original size:28 final size:27
Alignment explanation
Indices: 17387168--17387221 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
17387158 AAAAAAATCA
17387168 AAAAATTAAAAATCATTA-AATTTTTTTT
1 AAAAATTAAAAA--ATTATAATTTTTTTT
*
17387196 AAAATTTAAAAAATTATAATTTTTTT
1 AAAAATTAAAAAATTATAATTTTTTT
17387222 AATATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 4 0.17
27 9 0.38
28 11 0.46
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (27 bp):
AAAAATTAAAAAATTATAATTTTTTTT
Found at i:17391420 original size:15 final size:15
Alignment explanation
Indices: 17391400--17391433 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
17391390 ATAGAAAATG
17391400 TAAAAAAAATAAAAA
1 TAAAAAAAATAAAAA
17391415 TAAAAAAAATAAAAA
1 TAAAAAAAATAAAAA
17391430 TAAA
1 TAAA
17391434 TAGAATGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (15 bp):
TAAAAAAAATAAAAA
Found at i:17391552 original size:44 final size:44
Alignment explanation
Indices: 17391472--17391628 Score: 134
Period size: 44 Copynumber: 3.6 Consensus size: 44
17391462 ATATATAAGA
* *
17391472 AAAATAAT-AAT-GAAAATAATATTAGTATATAAATATAAAAAG
1 AAAATAATAAATAGAAAATAATAATAGTATAGAAATATAAAAAG
*
17391514 AAATATAATAAATAGAAATATAATAATAGT-T-GAAATATAAATAG
1 AAA-ATAATAAATAGAAA-ATAATAATAGTATAGAAATATAAAAAG
17391558 ATAAATAA-AAATTAGATAAATAATAATAGTATTAG-AATA-ACAAAA-
1 A-AAATAATAAA-TAGA-AAATAATAATAGTA-TAGAAATATA-AAAAG
* *
17391603 TAAA-CATAAATAGAAACATAATAATA
1 AAAATAATAAATAGAAA-ATAATAATA
17391629 CTAGAAATAA
Statistics
Matches: 96, Mismatches: 6, Indels: 25
0.76 0.05 0.20
Matches are distributed among these distances:
42 5 0.05
43 22 0.23
44 40 0.42
45 10 0.10
46 18 0.19
47 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (44 bp):
AAAATAATAAATAGAAAATAATAATAGTATAGAAATATAAAAAG
Found at i:17391573 original size:15 final size:14
Alignment explanation
Indices: 17391500--17391586 Score: 63
Period size: 15 Copynumber: 6.0 Consensus size: 14
17391490 ATATTAGTAT
17391500 ATAAATATAAAA-AG
1 ATAAATA-AAAATAG
17391514 A-AATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
17391529 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
17391543 TTGAAATATAAATAG
1 AT-AAATAAAAATAG
17391558 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
17391573 ATAAATAATAATAG
1 ATAAATAAAAATAG
17391587 TATTAGAATA
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
13 3 0.05
14 23 0.38
15 32 0.53
16 2 0.03
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:17391578 original size:29 final size:29
Alignment explanation
Indices: 17391521--17391579 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
17391511 AAGAAATATA
* *
17391521 ATAAATAGAAATATAATAATAGTTGAAAT
1 ATAAATAGAAATATAAAAATAGATGAAAT
17391550 ATAAATAGATAA-ATAAAAATTAGAT-AAAT
1 ATAAATAGA-AATATAAAAA-TAGATGAAAT
17391579 A
1 A
17391580 ATAATAGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (29 bp):
ATAAATAGAAATATAAAAATAGATGAAAT
Found at i:17392336 original size:25 final size:24
Alignment explanation
Indices: 17392306--17392352 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
17392296 AAATAAAAAT
*
17392306 TTTAAA-ATATAATAAATCAAATACA
1 TTTAAAGAAATAA-AAAT-AAATACA
17392331 TTTAAAGAAATAAAAATAAATA
1 TTTAAAGAAATAAAAATAAATA
17392353 TTAAAACAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 5 0.25
25 10 0.50
26 5 0.25
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (24 bp):
TTTAAAGAAATAAAAATAAATACA
Found at i:17392722 original size:16 final size:16
Alignment explanation
Indices: 17392705--17392735 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17392695 TTTAATAATA
17392705 AAAT-AAAATAAAAAT
1 AAATAAAAATAAAAAT
17392720 AAATAAAAATAAAAAT
1 AAATAAAAATAAAAAT
17392736 CATATCTTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
AAATAAAAATAAAAAT
Found at i:17394315 original size:10 final size:10
Alignment explanation
Indices: 17394295--17394333 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
17394285 TATAATCTAT
17394295 AGAAGAAAATA
1 AGAA-AAAATA
17394306 AGAAAAAATA
1 AGAAAAAATA
17394316 AGAAAAAA-A
1 AGAAAAAATA
17394325 ATGAAAAAA
1 A-GAAAAAA
17394334 AAAACCCTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 2 0.07
10 21 0.78
11 4 0.15
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (10 bp):
AGAAAAAATA
Done.